ELViS

^{R4.3 & Bioc3.18 (Ubuntu & Windows) :
R4.4 & Bioc3.19 (Ubuntu & Windows) :}

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An R Package for Estimating Copy Number Levels of Viral Genome Segments Using Base-Resolution Read Depth Profile.

DESCRIPTION • INSTALLATION • HOW TO USE •

DESCRIPTION

• Base-resolution copy number analysis of viral genome. Utilizes base-resolution read depth data over viral genome to find copy number segments with two-dimensional segmentation approach.

• Provides publish-ready figures, including

  • histograms of read depths
  • coverage line plots over viral genome annotated with copy number change events and viral genes
  • heatmaps showing multiple types of data with integrative clustering of samples.

INSTALLATION

To install this package, start R (version “4.5”) and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("ELViS")

HOW TO USE

Please refer to vignette.